QUBIC: An R package for qualitative biclustering in support of gene co-expression analyses

Version 1.6.4

The core function of this R package is to provide the
implementation of the well-cited and well-reviewed QUBIC algorithm, aiming to
deliver an effective and efficient biclustering capability. This package also
includes the following related functions: (i) a qualitative representation
of the input gene expression data, through a well-designed discretization way
considering the underlying data property, which can be directly used in other
biclustering programs; (ii) visualization of identified biclusters using heatmap
in support of overall expression pattern analysis; (iii) bicluster-based
co-expression network elucidation and visualization, where different correlation
coefficient scores between a pair of genes are provided; and (iv) a generalize
output format of biclusters and corresponding network can be freely downloaded
so that a user can easily do following comprehensive functional enrichment
analysis (e.g. DAVID) and advanced network visualization (e.g. Cytoscape).